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* dev-java/flexdock: EAPI bumpAndrew Ammerlaan2021-03-031-9/+11
| | | | | Package-Manager: Portage-3.0.16, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* app-text/zotero-bin: remove double PVAndrew Ammerlaan2021-03-022-2/+2
| | | | | Package-Manager: Portage-3.0.16, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* app-text/zotero-bin: minor version bumpAndrew Ammerlaan2021-03-022-1/+1
| | | | | Package-Manager: Portage-3.0.16, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* app-arch/libdeflate: version bump to 1.7Aisha Tammy2021-03-014-0/+61
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* dev-libs/boost: restore patchesSam James2021-02-273-0/+80
| | | | | Closes: https://github.com/gentoo/sci/issues/1059 Signed-off-by: Sam James <sam@gentoo.org>
* sci-libs/flexiblas: add alternate BLAS/LAPACK switchAisha Tammy2021-02-264-0/+118
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* dev-libs/memkind: version bump to 1.11.0Aisha Tammy2021-02-262-0/+55
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* sci-mathematics/netgen: fixup dep, <sci-libs/metis-5.0 unavailableAndrew Ammerlaan2021-02-252-2/+2
| | | | | Package-Manager: Portage-3.0.15, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* licenses/* clean-up unused licensesAndrew Ammerlaan2021-02-252-144/+0
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* */*: replace dead homepage compbio.dfci.harvard.edu to archive linkAndrew Ammerlaan2021-02-257-7/+7
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/prot4EST: update homepage: 500Andrew Ammerlaan2021-02-251-1/+1
| | | | | Package-Manager: Portage-3.0.15, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/miranda: update homepage: connect timeoutAndrew Ammerlaan2021-02-251-1/+1
| | | | | Package-Manager: Portage-3.0.15, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/dipy: update homepage: 404Andrew Ammerlaan2021-02-252-2/+2
| | | | | Package-Manager: Portage-3.0.15, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/BG7: update homepageAndrew Ammerlaan2021-02-251-2/+2
| | | | | Package-Manager: Portage-3.0.15, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/htk: drop dead packageAisha Tammy2021-02-254-149/+0
| | | | Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* sci-mathematics/lie: fixup to EAPI 7Aisha Tammy2021-02-254-139/+122
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* sci-libs/ensmallen: version bump to 2.16.0Aisha Tammy2021-02-252-0/+29
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* dev-python/bokeh: version bump to 2.3.0Aisha Tammy2021-02-252-0/+87
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* app-offic/visidata: use distutils_enable_testsWolfgang E. Sanyer2021-02-231-2/+3
| | | | | | Signed-off-by: Wolfgang E. Sanyer <WolfgangESanyer@gmail.com> Closes: https://github.com/gentoo/sci/pull/1057 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* app-office/visidata: add DISTUTILS_USE_SETUPTOOLS=rdependAndrew Ammerlaan2021-02-231-3/+4
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* app-office/visidata: bump to 2.1.1Wolfgang E. Sanyer2021-02-232-0/+83
| | | | | | Signed-off-by: Wolfgang E. Sanyer <WolfgangESanyer@gmail.com> Closes: https://github.com/gentoo/sci/pull/1041 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* net-misc/cernbox-client: Drop old version.Oliver Freyermuth2021-02-212-97/+0
| | | | | | | Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Oliver Freyermuth <o.freyermuth@googlemail.com> Closes: https://github.com/gentoo/sci/pull/1054 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* net-misc/cernbox-client: Bump to 2.7.6.3261.Oliver Freyermuth2021-02-212-0/+97
| | | | | | | | Follows new version of net-misc/owncloud-client. Package-Manager: Portage-3.0.13, Repoman-3.0.2 Signed-off-by: Oliver Freyermuth <o.freyermuth@googlemail.com> Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-mathematics/ltl2ba: Port to EAPI 7Jakov Smolic2021-02-201-9/+11
| | | | | Closes: https://bugs.gentoo.org/755374 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* sci-biology/tagdust: Port to EAPI 7Jakov Smolic2021-02-202-9/+85
| | | | | Closes: https://bugs.gentoo.org/755785 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* sci-biology/subread: Fix build with gcc-10Jakov Smolic2021-02-202-9/+15
| | | | | Closes: https://bugs.gentoo.org/755539 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* sci-biology/snap: Port to EAPI 7Jakov Smolic2021-02-202-7/+22
| | | | | Closes: https://bugs.gentoo.org/755779 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* sci-biology/samstat: Port to EAPI 7Jakov Smolic2021-02-202-5/+35
| | | | | Closes: https://bugs.gentoo.org/755773 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* sci-biology/rnaplex: Port to EAPI 7Jakov Smolic2021-02-202-5/+26
| | | | | Closes: https://bugs.gentoo.org/755770 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* sci-biology/mrfast: Port to EAPI 7Jakov Smolic2021-02-201-4/+9
| | | | | Closes: https://bugs.gentoo.org/755764 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* sci-biology/miranda: Port to EAPI 7Jakov Smolic2021-02-201-5/+9
| | | | | Closes: https://bugs.gentoo.org/755566 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* sci-biology/grappa: Apply gcc-10 workaroundJakov Smolic2021-02-202-0/+27
| | | | | Closes: https://bugs.gentoo.org/755311 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* sci-biology/erpin: Port to EAPI 7Jakov Smolic2021-02-202-6/+63
| | | | | Closes: https://bugs.gentoo.org/755092 Signed-off-by: Jakov Smolic <jakov.smolic@sartura.hr>
* scripts/check-duplicates.sh: skip categories metadata.xmlAndrew Ammerlaan2021-02-181-2/+2
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* .github/workflows/pkgcheck.yml: use the official pkgcore/pkgcheck-actionAndrew Ammerlaan2021-02-181-18/+6
| | | | | | now we get nice colored output Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* scripts/check-duplicates.sh: do not fatally exitAndrew Ammerlaan2021-02-181-1/+2
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* scripts/check-duplicates.sh: backport improvements from ::guruAndrew Ammerlaan2021-02-181-56/+57
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-chemistry/modeller: remove duplicate, exact same version is in ::gentooAndrew Ammerlaan2021-02-175-862/+0
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* scripts/check-duplicates.sh: s/guru/science/gAndrew Ammerlaan2021-02-171-14/+14
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* .github/workflows/duplicates.yml: fix name of branchAndrew Ammerlaan2021-02-171-2/+2
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* .github/workflows/duplicates.yml: add script to check for duplicatesAndrew Ammerlaan2021-02-172-0/+101
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sys-cluster/lmod: lmod is now in ::gentooAisha Tammy2021-02-146-683/+0
| | | | Signed-off-by: Aisha Tammy <gentoo@aisha.cc>
* dev-python/snakemake: re-gen manifestAndrew Ammerlaan2021-02-131-1/+1
| | | | | | | | | why does this keep happening? https://github.com/gentoo/sci/pull/1052 Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/Scaffolder-evaluation: fix small typoAndrew Ammerlaan2021-02-131-1/+1
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/canu: dolib --> dolib.aAndrew Ammerlaan2021-02-131-1/+1
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* profiles/package.mask: mark sci-biology/Sibelia for removal in 14 daysAndrew Ammerlaan2021-02-131-0/+5
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/canu: version bump, bump py targetsAndrew Ammerlaan2021-02-134-129/+11
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/kmergenie: version bump, correctly depend on pythonAndrew Ammerlaan2021-02-133-45/+23
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* sci-biology/conifer: drop pack, py2 only, last update 2012Andrew Ammerlaan2021-02-133-40/+0
| | | | Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>
* dev-lang/conceptual: drop python2Andrew Ammerlaan2021-02-131-1/+1
| | | | | Package-Manager: Portage-3.0.14, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan@riseup.net>